Owens

NAMD 2.12 now available on Owens

Date: 
Friday, February 10, 2017 - 3:15pm
System(s): 

NAMD 2.12 has been installed on Owens; usage is via the module namd/2.12. For information on available executables and installation details see the software page for NAMD or the output of the module help command, e.g.: module help namd/2.12.  On February 22, 2016, NAMD 2.12 will become available on all clusters, and 2.12 will become the default version.

Overview of File Systems

OSC has several different file systems where you can create files and directories. The characteristics of those systems and the policies associated with them determine their suitability for any particular purpose. This section describes the characteristics and policies that you should take into consideration in selecting a file system to use.

The various file systems are described in subsequent sections.

HOWTO: Use NFSv4 ACL

This document shows you how to use the NFSv4 ACL permissions system. An ACL (access control list) is a list of permissions associated with a file or directory. These permissions allow you to restrict access to a certian file or directory by user or group. NFSv4 ACLs provide more specific options than typical POSIX read/write/execute permissions used in most systems.

These commands are useful for managing ACLs in the dir locations of /users/<project-code>.

Understanding NFSv4 ACL

This is an example of an NFSv4 ACL

HOWTO: Reduce Disk Space Usage

This HOWTO will demonstrate how to lower ones' disk space usage. The following procedures can be applied to all of OSC's file systems.

We recommend users regularly check their data usage and clean out old data that is no longer needed.

Users who need assistance lowering their data usage can contact OSC Help.

LAMMPS 14May16 too-many-threads known issue fixed

Date: 
Wednesday, November 30, 2016 - 3:45pm
System(s): 

The LAMMPS 14May16 known issue wherein parallel lammps spawned too many threads has been fixed on all clusters.  No user action is required; if a user had applied the OMP_NUM_THREADS workaround then it may be removed, but it will not cause probems if left in place. The corrected executables were made the defaults for module lammps/14may16 at these times:

Darshan

Darshan is a lightweight "scalable HPC I/O characterization tool".  It is intended to profile I/O by emitting log files to a consistent log location for systems administrators, and also provides scripts to create summary PDFs to characterize I/O in MPI-based programs.

Availability and Restrictions

Versions

The following versions of Darshan are available on OSC clusters:

Pages